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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ), 'gf_id' => 'HOM05D001017', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001017' ), 'data_identifier' => 'HOM05D001017', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001017', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p20180' => 'bna', 'A04p28030' => 'bna', 'A05p09270' => 'bna', 'A05p15840' => 'bna', 'A07p39910' => 'bna', 'A09p46010' => 'bna', 'Aa31LG4G4340' => 'aar', 'Aa31LG5G21750' => 'aar', 'Aa31LG5G6900' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2752' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.2753' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.471' => 'aag', 'Actinidia08563' => 'ach', 'Actinidia11328' => 'ach', 'Actinidia13555' => 'ach', 'Actinidia25127' => 'ach', 'Actinidia31042' => 'ach', 'Actinidia39879' => 'ach', 'Ah.14g082640' => 'amhyb', 'Ah.15g091130' => 'amhyb', 'Ah.15g091140' => 'amhyb', 'AL2G33880' => 'aly', 'AL4G24270' => 'aly', 'AL4G32710' => 'aly', 'AL5G10850' => 'aly', 'AL5G33760' => 'aly', 'AL6G31880' => 'aly', 'AL7G40930' => 'aly', 'Aqoxy2G01438' => 'aox', 'Aqoxy2G02379' => 'aox', 'Aqoxy3G03827' => 'aox', 'Aqoxy7G00624' => 'aox', 'arahy.Tifrunner.gnm1.ann1.533ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7M2AWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.86EPEX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9UY90I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AX840Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ELJ55T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G24EMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LPU4ZQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ULMK35' => 'arhy', 'AT1G74030' => 'ath', 'AT2G29560' => 'ath', 'AT2G36530' => 'ath', 'ATR0618G425' => 'atr', 'ATR0691G125' => 'atr', 'ATR0761G001' => 'atr', 'ATR0810G114' => 'atr', 'Atru.chr1.638' => 'acertr', 'Atru.chr3.4052' => 'acertr', 'Atru.chr8.1645' => 'acertr', 'Atru.chr9.666' => 'acertr', 'AUR62001709' => 'cqu', 'AUR62020072' => 'cqu', 'AUR62032160' => 'cqu', 'AUR62033587' => 'cqu', 'AUR62036916' => 'cqu', 'AUR62037882' => 'cqu', 'BcaB01g00326' => 'bca', 'BcaB01g03831' => 'bca', 'BcaB02g09348' => 'bca', 'BcaB02g10262' => 'bca', 'BcaB02g11525' => 'bca', 'BcaB06g28950' => 'bca', 'BcaB06g28952' => 'bca', 'BcaC01g05653' => 'bca', 'BcaC02g07586' => 'bca', 'BcaC02g11771' => 'bca', 'BcaC07g39657' => 'bca', 'BcaC08g46505' => 'bca', 'BcaC08g46804' => 'bca', 'BcaC08g46833' => 'bca', 'BcaC08g46838' => 'bca', 'BolC3t14758H' => 'bol', 'BolC4t22805H' => 'bol', 'BolC4t23657H' => 'bol', 'BolC4t28032H' => 'bol', 'BolC6t39851H' => 'bol', 'BolC8t50432H' => 'bol', 'BraA03t11268Z' => 'bra', 'BraA04t18290Z' => 'bra', 'BraA05t19884Z' => 'bra', 'BraA05t20497Z' => 'bra', 'BraA07t31537Z' => 'bra', 'BraA09t40063Z' => 'bra', 'C03p23630' => 'bna', 'C04p11570' => 'bna', 'C04p21280' => 'bna', 'C04p65430' => 'bna', 'C06p48140' => 'bna', 'C07p27130' => 'bna', 'C08p28200' => 'bna', 'CAN.G1099.2' => 'can', 'CAN.G1123.2' => 'can', 'CAN.G1174.4' => 'can', 'CAN.G122.9' => 'can', 'CAN.G27.25' => 'can', 'CAN.G394.97' => 'can', 'CAN.G394.98' => 'can', 'CAN.G412.2' => 'can', 'CAN.G824.32' => 'can', 'CAN.G982.12' => 'can', 'CANSAT01G0741' => 'cansat', 'CANSAT54G0069' => 'cansat', 'CANSAT56G2919' => 'cansat', 'CANSAT56G4362' => 'cansat', 'CANSAT80G1433' => 'cansat', 'CANSAT80G1984' => 'cansat', 'CARHR067170' => 'chi', 'CARHR122900' => 'chi', 'CARHR130820' => 'chi', 'CARHR162840' => 'chi', 'Carub.0002s2082' => 'cru', 'Carub.0004s1061' => 'cru', 'Carub.0004s1833' => 'cru', 'Carub.0005s1944' => 'cru', 'Ca_02684_v3' => 'car', 'Ca_08963_v3' => 'car', 'Ca_25232_v3' => 'car', 'CBR_g12313' => 'cbr', 'CBR_g19863' => 'cbr', 'CBR_g38423' => 'cbr', 'CBR_g38698' => 'cbr', 'CBR_g38707' => 'cbr', 'CBR_g48754' => 'cbr', 'Cc01_g13690' => 'ccan', 'Cc04_g07840' => 'ccan', 'Cc06_g05150' => 'ccan', 'Cc08_g03630' => 'ccan', 'Cc11_g01000' => 'ccan', 'CDE01G0157' => 'cde', 'CDE02G2048' => 'cde', 'CDE04G3121' => 'cde', 'CDE07G0943' => 'cde', 'CDE07G1742' => 'cde', 'CDE09G0444' => 'cde', 'CDE11G0194' => 'cde', 'Cfa008227' => 'cfa', 'Cfa011629' => 'cfa', 'Cfa019860' => 'cfa', 'Cfa027126' => 'cfa', 'Ciclev10004965m.g' => 'ccl', 'Ciclev10011726m.g' => 'ccl', 'Ciclev10020008m.g' => 'ccl', 'Ciclev10028351m.g' => 'ccl', 'CiPaw.04G062700' => 'cil', 'CiPaw.10G004800' => 'cil', 'CiPaw.13G083700' => 'cil', 'CiPaw.15G122000' => 'cil', 'ClCG03G001020' => 'cla', 'ClCG04G009740' => 'cla', 'ClCG06G015210' => 'cla', 'COL.COLO4_08659' => 'col', 'COL.COLO4_10882' => 'col', 'COL.COLO4_14178' => 'col', 'COL.COLO4_19082' => 'col', 'COL.COLO4_29824' => 'col', 'Cpa.g.sc112.83' => 'cpa', 'Cpa.g.sc112.84' => 'cpa', 'Cpa.g.sc112.86' => 'cpa', 'Cpa.g.sc13.89' => 'cpa', 'Cpa.g.sc3.274' => 'cpa', 'Cpa.g.sc5.86' => 'cpa', 'Cre12.g513200' => 'cre', 'CsaV3_1G003090' => 'csa', 'CsaV3_1G035920' => 'csa', 'CsaV3_6G040390' => 'csa', 'CSS0004388' => 'camsi', 'CSS0006142' => 'camsi', 'CSS0014293' => 'camsi', 'CSS0020326' => 'camsi', 'CSS0021646' => 'camsi', 'CSS0039573' => 'camsi', 'CSS0039585' => 'camsi', 'CSS0042831' => 'camsi', 'CSS0045082' => 'camsi', 'CSS0050039' => 'camsi', 'DCAR_011329' => 'dca', 'DCAR_018939' => 'dca', 'DCAR_020781' => 'dca', 'DCAR_020782' => 'dca', 'DCAR_021654' => 'dca', 'Dinv10845' => 'din', 'Dinv14481' => 'din', 'Dinv16106' => 'din', 'Dinv16750' => 'din', 'Dinv19820' => 'din', 'Dinv21265' => 'din', 'Dinv28536' => 'din', 'Dinv36855' => 'din', 'Dinv38612' => 'din', 'Dinv38613' => 'din', 'Dinv39607' => 'din', 'Duzib093G0830' => 'dzi', 'Duzib093G1966' => 'dzi', 'Duzib106G0355' => 'dzi', 'Duzib168G1280' => 'dzi', 'Duzib170G0216' => 'dzi', 'Duzib205G0448' => 'dzi', 'Duzib205G0673' => 'dzi', 'ECA232G2607' => 'eca', 'ECA238G0008' => 'eca', 'ECA238G0143' => 'eca', 'ECA246G0429' => 'eca', 'ECA248G3062' => 'eca', 'EL10Ac5g11214' => 'bvu', 'EL10Ac7g16101' => 'bvu', 'EL10Ac7g17000' => 'bvu', 'Eucgr.J01952' => 'egr', 'FAN01G1893' => 'fan', 'FAN02G2051' => 'fan', 'FAN03G1199' => 'fan', 'FAN03G3124' => 'fan', 'FAN05G0798' => 'fan', 'FAN05G2934' => 'fan', 'FAN06G2121' => 'fan', 'FAN06G4217' => 'fan', 'FAN08G3272' => 'fan', 'FAN09G1019' => 'fan', 'FAN10G2671' => 'fan', 'FAN11G0981' => 'fan', 'FAN11G2558' => 'fan', 'FAN13G1606' => 'fan', 'FAN14G0261' => 'fan', 'FAN16G1753' => 'fan', 'FAN18G0747' => 'fan', 'FAN21G0711' => 'fan', 'FAN25G2676' => 'fan', 'FvH4_3g37690' => 'fve', 'FvH4_4g35091' => 'fve', 'FvH4_5g12990' => 'fve', 'FvH4_6g17770' => 'fve', 'FvH4_7g28150' => 'fve', 'Glyma.02G304200' => 'gma', 'Glyma.03G190500' => 'gma', 'Glyma.04G144300' => 'gma', 'Glyma.04G157000' => 'gma', 'Glyma.06G208200' => 'gma', 'Glyma.09G153900' => 'gma', 'Glyma.14G009600' => 'gma', 'Glyma.15G207833' => 'gma', 'Glyma.16G204600' => 'gma', 'Glyma.19G190900' => 'gma', 'Gohir.A01G209600' => 'ghi', 'Gohir.A03G073600' => 'ghi', 'Gohir.A07G039200' => 'ghi', 'Gohir.A09G136500' => 'ghi', 'Gohir.A09G136600' => 'ghi', 'Gohir.A09G136612' => 'ghi', 'Gohir.A13G225500' => 'ghi', 'Gohir.D01G198700' => 'ghi', 'Gohir.D03G100000' => 'ghi', 'Gohir.D04G104700' => 'ghi', 'Gohir.D07G043400' => 'ghi', 'Gohir.D09G137900' => 'ghi', 'Gohir.D13G230600' => 'ghi', 'Gorai.001G046400' => 'gra', 'Gorai.002G243100' => 'gra', 'Gorai.003G105100' => 'gra', 'Gorai.006G158500' => 'gra', 'Gorai.013G261200' => 'gra', 'GSVIVG01008197001' => 'vvi', 'GSVIVG01015129001' => 'vvi', 'GSVIVG01018517001' => 'vvi', 'GSVIVG01024818001' => 'vvi', 'GSVIVG01033770001' => 'vvi', 'HanXRQChr01g0028341' => 'han', 'HanXRQChr05g0135571' => 'han', 'HanXRQChr05g0157781' => 'han', 'HanXRQChr06g0181591' => 'han', 'HanXRQChr11g0351111' => 'han', 'HanXRQChr16g0512701' => 'han', 'Haze_13827' => 'cav', 'Haze_18559' => 'cav', 'Haze_19529' => 'cav', 'Haze_24234' => 'cav', 'Haze_26407' => 'cav', 'Haze_26613' => 'cav', 'Hma1.2p1_0084F.1_g043150' => 'hma', 'Hma1.2p1_0099F.1_g048930' => 'hma', 'Hma1.2p1_0274F.1_g110270' => 'hma', 'Hma1.2p1_0289F.1_g114270' => 'hma', 'Hma1.2p1_0447F.1_g154770' => 'hma', 'Hma1.2p1_0651F.1_g195800' => 'hma', 'Hma1.2p1_0690F.1_g203870' => 'hma', 'HPP92_014286' => 'vpl', 'HPP92_014287' => 'vpl', 'HPP92_014950' => 'vpl', 'HPP92_014979' => 'vpl', 'HPP92_020663' => 'vpl', 'HPP92_021646' => 'vpl', 'Hund04622' => 'sun', 'Hund09979' => 'sun', 'Hund18870' => 'sun', 'Hund20469' => 'sun', 'Hund20471' => 'sun', 'Lalb_Chr01g0018351' => 'lal', 'Lalb_Chr03g0033121' => 'lal', 'Lalb_Chr03g0039471' => 'lal', 'Lalb_Chr04g0247371' => 'lal', 'Lalb_Chr04g0247591' => 'lal', 'Lalb_Chr04g0247601' => 'lal', 'Lalb_Chr04g0247611' => 'lal', 'Lalb_Chr04g0247621' => 'lal', 'Lalb_Chr08g0235231' => 'lal', 'Lalb_Chr19g0131331' => 'lal', 'Lalb_Chr20g0112241' => 'lal', 'Lalb_Chr23g0274081' => 'lal', 'Lalb_Chr25g0288721' => 'lal', 'Lj1g0007718' => 'lja', 'Lj1g0016298' => 'lja', 'Lj1g0023079' => 'lja', 'Lj1g0027517' => 'lja', 'Lj2A128G36' => 'lonja', 'Lj2C1074G5' => 'lonja', 'Lj2C1074T2' => 'lonja', 'Lj2g0007326' => 'lja', 'Lj3C1004T9' => 'lonja', 'Lj5C140T11' => 'lonja', 'Lj9C434G14' => 'lonja', 'LjContig00081g0002926' => 'lja', 'Lsat_1_v5_gn_1_50300' => 'lsa', 'Lsat_1_v5_gn_1_65601' => 'lsa', 'Lsat_1_v5_gn_2_118500' => 'lsa', 'Lsat_1_v5_gn_2_129481' => 'lsa', 'Lsat_1_v5_gn_2_16440' => 'lsa', 'Lsat_1_v5_gn_2_21500' => 'lsa', 'Lsat_1_v5_gn_3_103720' => 'lsa', 'Lsat_1_v5_gn_4_111601' => 'lsa', 'Lsat_1_v5_gn_4_14140' => 'lsa', 'Lsat_1_v5_gn_4_65521' => 'lsa', 'Lsat_1_v5_gn_5_24101' => 'lsa', 'Lsat_1_v5_gn_6_57441' => 'lsa', 'Lsat_1_v5_gn_8_106280' => 'lsa', 'Lsat_1_v5_gn_8_61901' => 'lsa', 'Lsat_1_v5_gn_8_64341' => 'lsa', 'Lsat_1_v5_gn_8_70940' => 'lsa', 'Lsat_1_v5_gn_8_72221' => 'lsa', 'Manes.01G023200' => 'mes', 'Manes.01G165700' => 'mes', 'Manes.08G020200' => 'mes', 'Manes.09G060608' => 'mes', 'Manes.14G033200' => 'mes', 'Mapoly0005s0074' => 'mpo', 'Mapoly0074s0051' => 'mpo', 'Mapoly0081s0050' => 'mpo', 'MBI02_g07197_MAGBIO' => 'mbi', 'MBI02_g34990_MAGBIO' => 'mbi', 'MBI02_g38359_MAGBIO' => 'mbi', 'MBI02_g43806_MAGBIO' => 'mbi', 'MBI04_g35279_MAGBIO' => 'mbi', 'MBI09_g19219_MAGBIO' => 'mbi', 'MBI11_g02040_MAGBIO' => 'mbi', 'MBI12_g00579_MAGBIO' => 'mbi', 'MBI12_g16191_MAGBIO' => 'mbi', 'MBI12_g27880_MAGBIO' => 'mbi', 'MBI14_g25914_MAGBIO' => 'mbi', 'MBI14_g40262_MAGBIO' => 'mbi', 'MBI15_g29354_MAGBIO' => 'mbi', 'MBI17_g30590_MAGBIO' => 'mbi', 'MBI18_g31318_MAGBIO' => 'mbi', 'MBI18_g31322_MAGBIO' => 'mbi', 'MBI18_g47141_MAGBIO' => 'mbi', 'MBI19_g03232_MAGBIO' => 'mbi', 'MBI19_g32129_MAGBIO' => 'mbi', 'MCO01G025' => 'mco', 'MD01G1185500' => 'mdo', 'MD03G1078500' => 'mdo', 'MD06G1208300' => 'mdo', 'MD11G1083100' => 'mdo', 'MD12G1016600' => 'mdo', 'MD13G1227200' => 'mdo', 'MD14G1014600' => 'mdo', 'MD14G1218700' => 'mdo', 'Medtr2g056190' => 'mtr', 'Medtr5g096970' => 'mtr', 'Medtr6g060570' => 'mtr', 'Medtr7g103620' => 'mtr', 'MELO3C017268.2' => 'cme', 'MELO3C020579.2' => 'cme', 'MELO3C024514.2' => 'cme', 'MELO3C026748.2' => 'cme', 'Migut.D02142' => 'egut', 'Migut.I00359' => 'egut', 'Migut.J00994' => 'egut', 'MSTRG.10349' => 'ama', 'MSTRG.19225' => 'ama', 'MSTRG.21173' => 'ama', 'MSTRG.21176' => 'ama', 'MSTRG.26654' => 'ama', 'MSTRG.4500' => 'ama', 'MSTRG.9573' => 'ama', 'Nitab4.5_0000132g0250' => 'nta', 'Nitab4.5_0000381g0350' => 'nta', 'Nitab4.5_0000646g0160' => 'nta', 'Nitab4.5_0000744g0110' => 'nta', 'Nitab4.5_0001922g0070' => 'nta', 'Nitab4.5_0002387g0010' => 'nta', 'Nitab4.5_0002387g0030' => 'nta', 'Nitab4.5_0004342g0060' => 'nta', 'Nitab4.5_0005504g0040' => 'nta', 'Nitab4.5_0010922g0010' => 'nta', 'Nitab4.5_0011134g0020' => 'nta', 'Nitab4.5_0013330g0020' => 'nta', 'Nitab4.5_0013330g0040' => 'nta', 'Nn1g01228' => 'nnu', 'Nn1g04046' => 'nnu', 'Nn2g11340' => 'nnu', 'Nn2g13581' => 'nnu', 'Nn2g13984' => 'nnu', 'Nn2g14556' => 'nnu', 'Nn3g17627' => 'nnu', 'Nn4g23631' => 'nnu', 'Nn6g35065' => 'nnu', 'Oeu002419.1' => 'oeu', 'Oeu010841.2' => 'oeu', 'Oeu017393.1' => 'oeu', 'Oeu018714.2' => 'oeu', 'Oeu040544.2' => 'oeu', 'Oeu040754.1' => 'oeu', 'Oeu044494.4' => 'oeu', 'Oeu052895.1' => 'oeu', 'Os03g0248600' => 'osa', 'Os03g0266200' => 'osa', 'Os06g0136600' => 'osa', 'Os09g0375000' => 'osa', 'Os10g0167300' => 'osa', 'Peaxi162Scf00017g03139' => 'pax', 'Peaxi162Scf00110g01814' => 'pax', 'Peaxi162Scf00433g00096' => 'pax', 'Peaxi162Scf01058g00157' => 'pax', 'Peaxi162Scf71174g00002' => 'pax', 'PGR004G2140' => 'pgr', 'PGR083G2648' => 'pgr', 'PGR119G1843' => 'pgr', 'PGSC0003DMG400011044' => 'stu', 'PGSC0003DMG400030344' => 'stu', 'PGSC0003DMG401024510' => 'stu', 'PGSC0003DMG402002721' => 'stu', 'Phvul.001G186100' => 'pvu', 'Phvul.004G127500' => 'pvu', 'Phvul.008G283801' => 'pvu', 'Phvul.009G191100' => 'pvu', 'Potri.006G116800' => 'ptr', 'Potri.009G040700' => 'ptr', 'Potri.012G057500' => 'ptr', 'Potri.012G129300' => 'ptr', 'Potri.015G131100' => 'ptr', 'Pp3c13_23550' => 'ppa', 'Pp3c13_5060' => 'ppa', 'Pp3c15_4000' => 'ppa', 'Pp3c2_34930' => 'ppa', 'Pp3c3_3140' => 'ppa', 'Pp3c3_3160' => 'ppa', 'PRCOL_00003078' => 'pco', 'PRCOL_00005171' => 'pco', 'Prupe.2G281900' => 'ppe', 'Prupe.5G212800' => 'ppe', 'Prupe.6G063500' => 'ppe', 'Prupe.7G118700' => 'ppe', 'Prupe.8G211900' => 'ppe', 'Psat1g028040' => 'psa', 'Psat1g109840' => 'psa', 'Psat2g005240' => 'psa', 'Psat3g036800' => 'psa', 'PSO017G1289' => 'pso', 'PSO017G6006' => 'pso', 'PSO063G0107' => 'pso', 'PSO063G0291' => 'pso', 'PSO063G0941' => 'pso', 'PSO339G3997' => 'pso', 'PSO384G0146' => 'pso', 'PSO478G2722' => 'pso', 'PSO732G0022' => 'pso', 'PSO782G1821' => 'pso', 'PSO782G5352' => 'pso', 'PSO782G5736' => 'pso', 'PSO832G2878' => 'pso', 'QL01p029004' => 'qlo', 'QL07p040681' => 'qlo', 'QL08p005860' => 'qlo', 'QL10p022056' => 'qlo', 'QL12p039638' => 'qlo', 'RcHm_v2.0_Chr1g0375091' => 'rch', 'RcHm_v2.0_Chr3g0472001' => 'rch', 'RcHm_v2.0_Chr5g0050161' => 'rch', 'RcHm_v2.0_Chr5g0067961' => 'rch', 'RcHm_v2.0_Chr7g0184181' => 'rch', 'Rhsim03G0081900' => 'rsi', 'Rhsim03G0171300' => 'rsi', 'Rhsim11G0054300' => 'rsi', 'Rhsim13G0074400' => 'rsi', 'Sabra06G0091200' => 'sbr', 'Sabra09G0028600' => 'sbr', 'Sabra12G0042400' => 'sbr', 'Sabra12G0097200' => 'sbr', 'Sabra15G0081000' => 'sbr', 'Sabra15G0144300' => 'sbr', 'SalBow3G1076' => 'sbo', 'SalBow3G1457' => 'sbo', 'SalBow3G2455' => 'sbo', 'SalBow3G2549' => 'sbo', 'SalBow5G2543' => 'sbo', 'SalBow8G3641' => 'sbo', 'Sc02g0001170' => 'sci', 'Sc04g0004050' => 'sci', 'Sc07g0005370' => 'sci', 'Sc12g0001040' => 'sci', 'Sed0009727' => 'sed', 'Sed0010426' => 'sed', 'Sed0017882' => 'sed', 'Sed0026371' => 'sed', 'SEGI_09330' => 'sgi', 'SEGI_26630' => 'sgi', 'SEGI_28816' => 'sgi', 'SEGI_29902' => 'sgi', 'SGA_v2.0_scaffold134G34755' => 'sas', 'SGA_v2.0_scaffold19G08820' => 'sas', 'SGA_v2.0_scaffold40G15414' => 'sas', 'SGA_v2.0_scaffold75G24800' => 'sas', 'SHI05893' => 'shi', 'SHI12235' => 'shi', 'SHI18984' => 'shi', 'SHI38241' => 'shi', 'SMO137G0162' => 'smo', 'SMO351G0482' => 'smo', 'SMO361G0020' => 'smo', 'SMO361G0731' => 'smo', 'Solyc02g150124.1' => 'sly', 'Solyc03g114500.4' => 'sly', 'Solyc06g076650.4' => 'sly', 'Solyc09g009020.3' => 'sly', 'Solyc10g045050.1' => 'sly', 'Solyc10g085550.3' => 'sly', 'Sopen03g033590' => 'spe', 'Sopen06g033040' => 'spe', 'Sopen09g003760' => 'spe', 'Sopen09g013190' => 'spe', 'Sopen10g034960' => 'spe', 'Sp4g12290' => 'spa', 'Sp4g18820' => 'spa', 'Sp5g09370' => 'spa', 'Sp5g29250' => 'spa', 'TAR369G0241' => 'tar', 'TAR371G0828' => 'tar', 'TAR374G0249' => 'tar', 'TAR375G0104' => 'tar', 'TAR375G0781' => 'tar', 'TAR623G0179' => 'tar', 'TAR629G1800' => 'tar', 'TAR633G2410' => 'tar', 'TAR636G2951' => 'tar', 'THA.LOC104805113' => 'tha', 'THA.LOC104808296' => 'tha', 'THA.LOC104826300' => 'tha', 'THA.LOC104827486' => 'tha', 'Thecc.03G113500' => 'tca', 'Thecc.03G161200' => 'tca', 'Thecc.05G080300' => 'tca', 'Thecc.09G308200' => 'tca', 'Thhalv10010378m.g' => 'esa', 'Thhalv10010379m.g' => 'esa', 'Thhalv10016594m.g' => 'esa', 'Thhalv10018478m.g' => 'esa', 'TPR.G10652' => 'tpr', 'TPR.G1319' => 'tpr', 'TPR.G21308' => 'tpr', 'TPR.G28360' => 'tpr', 'TPR.G35255' => 'tpr', 'TWI31G0904' => 'twi', 'TWI39G0049' => 'twi', 'TWI53G0609' => 'twi', 'TWI74G0474' => 'twi', 'TWI77G0014' => 'twi', 'TWI79G1202' => 'twi', 'TWI81G0795' => 'twi', 'unitig_22.g5115' => 'ugi', 'unitig_747.g22021' => 'ugi', 'unitig_8.g4135' => 'ugi', 'vmacro03003' => 'vma', 'vmacro06768' => 'vma', 'vmacro07370' => 'vma', 'vmacro17648' => 'vma', 'VMungo0464G1289' => 'vmu', 'VMungo0647G0830' => 'vmu', 'VMungo1309G2826' => 'vmu', 'VMungo1383G1262' => 'vmu', 'Zm00001eb011890' => 'zma', 'Zm00001eb026940' => 'zma', 'Zm00001eb098760' => 'zma', 'Zm00001eb270050' => 'zma', 'Zm00001eb311450' => 'zma', 'Zm00001eb377870' => 'zma', 'Zm00001eb397960' => 'zma', 'Zm00001eb421480' => 'zma' ) $gf_id = 'HOM05D001017' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001017' ) $data_identifier = 'HOM05D001017' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 6, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 3, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 15, 'bol' => (int) 6, 'bra' => (int) 6, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 10, 'dca' => (int) 5, 'din' => (int) 11, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 13, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 5, 'lal' => (int) 13, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 17, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 19, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 7, 'nta' => (int) 13, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 4, 'pso' => (int) 13, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'shi' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421480' $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